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‎_config.yml‎

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- title: envelope
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url: mailto:RLDittmar@mdanderson.org
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- title: twitter
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url: https://twitter.com/RLDittmar
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- title: linkedin
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url: https://www.linkedin.com/in/racheldittmar
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- name: Aatish Thennavan
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url: LYang15@mdanderson.org
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- name: Reem Elghaish
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pic: reem
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position: Graduate Student
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social:
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- title: envelope
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url: raelghaish@mdanderson.org
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- name: Chante Bethell
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pic: chante
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position: Graduate Student
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url: CJBethell@mdanderson.org
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‎_includes/code.html‎

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<h2 class="section-heading">Code</h2>
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<h3 class="section-subheading text-muted">We strive to develop innovative, well-tested, and well-documented tools for genome research.</h3>
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<a href="hhttps://github.com/navinlabcode/copykit"><img src="img/software/copykit.jpg"/></a>
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</div>
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<div class="col-md-6 col-sm-5 col-xs-6 publication-description">
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<h4><a href="https://www.biorxiv.org/content/10.1101/2022.03.09.483497v1">Resolving clonal substructure from single cell genomic data using CopyKit</a>&nbsp;&nbsp;<span class="style_3">(Preprint</span>)</h4>
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<ul class="publication-authors">
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<li>Darlan Conterno Minussi</li>
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<li>Alexander Davis,</li>
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<li>Junke Wang</li>
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<li>Nicholas Navin </li>
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<h4><a href="https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1311-2">SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models
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</a>&nbsp;&nbsp;<span class="style_3">(Genome Biology</span>)</h4>
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<li>Hamim Zafar</li>
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<li>YAnthony Tzen</li>
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<li>Ken Chen</li>
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<a href="https://bitbucket.org/hamimzafar/monovar"><img src="img/software/monovar.png"/></a>
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<h4><a href="https://www.nature.com/articles/nmeth.3835">Monovar: single nucleotide variant detection in single cells</a>&nbsp;&nbsp;<span class="style_3">(Nature methods</span>)</h4>
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<ul class="publication-authors">
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<li>Hamim Zafar</li>
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<li>Yong Wang</li>
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<h4><a href="https://www.nature.com/articles/s41587-020-00795-2">Breast tumours maintain a reservoir of subclonal diversity during expansion</a></h4> <span class="style_3">Nature</span>
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<h4><a href="https://www.cell.com/cell/fulltext/S0092-8674(23)00802-4">Archival single-cell genomics reveals persistent subclones during DCIS progression</a></h4> <span class="style_3">Cell</span>
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<li>Maxime Tarabich</li>
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<li>Tapsi Kumar</li>
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<li>Darlan Conterno Minussi</li>
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<li>Emi Sei</li>
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<li>Haowei Du</li>
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<li>Mashiat Rabbani</li>
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<li>Cheng Peng</li>
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<li>Jianzhuo Li</li>
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<li>Tuan M. Tran</li>
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<li>Aatish Thennavan</li>
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<li>Anna K. Casasent</li>
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<li>Zhenna Xiao</li>
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<h4><a href="https://www.sciencedirect.com/science/article/pii/S0092867418303659?via%3Dihub">Chemoresistance Evolution in Triple-Negative Breast Cancer Delineated by Single-Cell Sequencing</a></h4> <span class="style_3">Cell</span>
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<h4><a href="https://www.nature.com/articles/s41586-023-06252-9">A spatially resolved single-cell genomic atlas of the adult human breast</a></h4><span class="style_3">Nature</span>
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<li>Johan Hartman</li>
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<li>Thomas Hatschek</li>
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<li>Nicola Crosetto</li>
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<li>Theodoros Foukakis</li>
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<li>Nicholas Navin</li>
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<li>Tapsi Kumar</li>
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<li>Kevin Nee</li>
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<li>Runmin Wei</li>
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<li>Siyuan He</li>
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<li>Quy H. Nguyen</li>
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<li>Shanshan Bai</li>
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<li>Kerrigan Blake</li>
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<li>Devon A. Lawson</li>
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<li>Kai Kessenbrock</li>
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<h4><a href="https://www.sciencedirect.com/science/article/pii/S0092867417314496?via%3Dihub">Multiclonal Invasion in Breast Tumors Identified by Topographic Single Cell Sequencing</a></h4><span class="style_3">Cell</span>
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<h4><a href="https://www.nature.com/articles/s41587-020-00795-2">Breast tumours maintain a reservoir of subclonal diversity during expansion</a></h4> <span class="style_3">Nature</span>
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<li>Tod Casasent</li>
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<li>Anna K. Casasent</li>
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<li>FundaMeric Bernstam</li>
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<li>Mary E.Edgerton</li>
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<li>Nicholas Navin</li>
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<li>Darlan C. Minussi</li>
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<li>Hanghui Ye</li>
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<li>Alexander Davis</li>
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<li>Kaile Wang</li>
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<li>Toby Baker</li>
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<li>Haowei Du</li>
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<li>Mashiat Rabbani</li>
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<li>Cheng Peng</li>
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<li>Ruli Gao</li>
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<li>Xiuqing Shi</li>
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<li>Yong Wang</li>
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<li>Anna Casasent</li>
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<li>Jill Waters</li>
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<li>Hong Zhang</li>
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<li>Franziska Michor</li>
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<li>Nicholas Navin</li>
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<h4><a href="https://www.nature.com/articles/nature13600">Clonal evolution in breast cancer revealed by single nucleus genome sequencing</a></h4><span class="style_3">Nature</span>
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<li>Han Liang</li>
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